PDB Download
Fetch structure coordinate and sequence files from RCSB PDB by PDB ID.
Input
Output
1CRN
4HHB
1Q0L
Input
Output
1CRN
4HHB
1Q0L
How to download PDB files?
PDB Download fetches coordinate and sequence files from RCSB PDB using a 4-character PDB ID. It returns PDB, CIF, and FASTA download links in the results panel.
Use this tool when you already know the structure ID and want the raw files for visualization, conversion, sequence extraction, structure repair, or downstream structural analysis.
| Input | Description |
|---|---|
Entry ID | Four-character PDB ID. Examples: 1CRN, 4HHB, 1Q0L. |
| Setting | Description |
|---|---|
Database | Opens the selected database download tool. |
Output format | Return all files, PDB, mmCIF, or FASTA. |
Supported PDB downloads
| File | Format | Use |
|---|---|---|
| PDB | .pdb | Legacy coordinate format accepted by many structure tools. |
| CIF | .cif | Modern mmCIF coordinate format with richer metadata. |
| FASTA | .fasta | Polymer sequences associated with the structure. |
Understanding the results
The results panel lists each available file as a separate downloadable item. Structure files are remote downloads, while the Details tab provides the database, entry ID, file label, format, filename, and URL.
Filenames follow the pattern:
rcsb-1CRN-pdb.pdb
rcsb-1CRN-cif.cif
rcsb-1CRN-fasta.fastaIf you need the sequence from an uploaded structure instead of the RCSB record, use PDB to FASTA. If the structure needs cleanup before modeling, use PDB Fixer.
Common use cases
- Download a crystal structure before viewing it in PDB Viewer.
- Fetch mmCIF files for tools that prefer modern structure metadata.
- Retrieve FASTA sequences associated with experimental structures.
- Download coordinates before converting to another format.
FAQ
What is the difference between PDB and CIF?
PDB is the older fixed-width coordinate format. CIF is the modern structure format used by the Protein Data Bank and can represent larger structures and richer metadata more reliably.
Can I search by protein name?
This download tool is intended for direct ID retrieval. Use /app/databases for broad text search, or enter a known PDB ID here.
Why should I download FASTA from a structure record?
The FASTA file is useful when you want the structure-associated polymer sequence without parsing coordinate records yourself.
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